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Genome-wide identification,characterization and functional prediction of the SRS gene family in sesame(Sesamum indicum L.)

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Oil Crop Science 2024年第2期9卷 69-80页

作者： Farjana Afroz Susmi Tasmina Islam Simi Md Nahid Hasan Md Abdur Rahim department of Genetics and plant breeding Sher-e-Bangla Agricultural UniversityDhaka1207Bangladesh

Sesame(Sesamum indicum L.)is an ancient oilseed crop of the Pedaliaceae family with high oil content and potential health *** RELATED SEQUENCE(SRS)proteins are the transcription factors(TFs)specific to plants that contain RING-like zinc finger domain and are associated with the regulation of several physiological and biochemical *** also play vital roles in plant growth and development such as root formation,leaf development,floral development,hormone biosynthesis,signal transduction,and biotic and abiotic stress ***,the SRS gene family was not reported in sesame *** this study,identification,molecular characterization,phylogenetic relationship,cis-acting regulatory elements,protein-protein interaction,syntenic relationship,duplication events and expression pattern of SRS genes were analyzed in *** identified total six SiSRS genes on seven different linkage groups in the *** genome by comparing with the other species,including the model plant Arabidopsis *** SiSRS genes showed variation in their structure like2–5 exons and 1–4 *** other species,SiSRS proteins also contained‘RING-like zinc finger'and‘LRP1'***,the SiSRS genes were clustered into subclasses via phylogenetic analysis with proteins of ***,***,and some other plant *** cis-acting regulatory elements analysis revealed that the promoter region of SiSRS4(SIN_1011561)showed the highest 13 and 16 elements for light-and phytohormone-responses whereas,SiSRS1(SIN_1015187)showed the highest 15 elements for *** ABREs,or ABA-responsive elements,were found in a maximum of 8 copies in the SiSRS3(SIN 1009100).Moreover,the available RNA-seq based expression of SiSRS genes revealed variation in expression patterns between stress-treated and non-treated samples,especially in drought and salinity conditions *** SiSRS genes like SiSRS1(SIN_1015187)and SiSRS5(SIN_1021065),also exhibited variabl

关键词： SiSRS gene family SHI Transcription factor Characterization Sesamum indicum

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Exploring the genetic basis of pre-harvest sprouting in rice through a genome-wide association study-based haplotype analysis

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Journal of Integrative Agriculture 2024年第8期23卷 2525-2540页

作者： Myeong-Hyeon Min Aye Aye Khaing Sang-Ho Chu Bhagwat Nawade Yong-Jin Park department of plant Resources College of Industrial SciencesKongju National UniversityYesan 32439Republic of Korea department of agronomy Yezin Agricultural UniversityNay Pyi Taw 15013Myanmar

Pre-harvest sprouting(PHS)poses a significant global challenge to cereal production,impacting both yield and *** this study,we employed genome-wide association studies(GWAS)on diverse rice accessions to identify novel PHS-associated *** assessment of 127 cultivated accessions for panicle germination(PHS)and detached grain germination(germination rate of detached grains at the 14th day(D14))revealed considerable phenotypic variation among rice *** analysis identified 91 significant signals at–log10(P-value)>5,including 15SNPs for PHS and 76 SNPs for D14.A subsequent linkage disequilibrium(LD)block-based GWAS analysis detected 227 significant SNPs for both traits,consisting of 18 nonsynonymous substitutions located on the coding regions of nine *** haplotype analysis identified 32 haplotypes,with 10 specific to cultivated accessions,19 specific to the wild type,and three shared between them.A phenotypic assessment of major haplotypes revealed significant differences between resistant(Hap1 and Hap2)and susceptible haplotypes(Hap5,Hap27,and Hap28),distinguished by a G/A SNP within a novel gene,*** identified haplotypes offer promising prospects for haplotypebased breeding aimed at enhancing PHS resistance in rice.

关键词： rice PHS dormancy germination GWAS haplotype abiotic stress

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Rice Heat Tolerance breeding: A Comprehensive Review and Forward Gaze

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Rice science 2024年第4期31卷 375-400,I0022页

作者： Ravindran Lalithambika VISAKH Sreekumar ANAND Sukumaran Nair ARYA Behera SASMITA Uday Chand JHA Rameswar Prasad SAH Radha BEENA department of Genetics and plant breeding College of AgricultureVellayaniKerala Agricultural UniversityThiruvananthapuramKerala 695522India Crop Improvement Division Indian Council of Agricultural Research-National Rice Research InstituteCuttackOdisha 7530006India department of plant breeding and Genetics Indian Institute of Pulse ResearchKanpur 208024India department of plant Physiology College of AgricultureVellayaniKerala Agricultural UniversityThiruvananthapuramKerala 695522India

The yield potential of rice is seriously affected by heat stress due to climate change. Since rice is a staple food globally, it is imperative to develop heat-resistant rice varieties. Thus, a thorough understanding of the complex molecular mechanisms underlying heat tolerance and the impact of high temperatures on various critical stages of the crop is needed. Adoption of both conventional and innovative breeding strategies offers a long-term advantage over other methods, such as agronomic practices, to counter heat stress. In this review, we summarize the effects of heat stress, regulatory pathways for heat tolerance, phenotyping strategies, and various breeding methods available for developing heat-tolerant rice. We offer perspectives and knowledge to guide future research endeavors aimed at enhancing the ability of rice to withstand heat stress and ultimately benefit humanity.

关键词： genetic mechanism high-temperature stress molecular breeding genomics selection

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Striking a growth–defense balance:Stress regulators that function in maize development

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Journal of Integrative plant Biology 2024年第3期66卷 424-442页

作者： Shiyi Xie Hongbing Luo Wei Huang Weiwei Jin Zhaobin Dong Maize Engineering and Technology Research Center of Hunan Province College of AgronomyHunan Agricultural UniversityChangsha 410128China State Key Laboratory of Maize Bio-breeding National Maize Improvement CenterFrontiers Science Center for Molecular Design BreedingChina Agricultural UniversityBeijing 100193China Tianjin Key Laboratory of Intelligent breeding of Major Crops Fresh Corn Research Center of BTHCollege of Agronomy&Resources and EnvironmentTianjin Agricultural UniversityTianjin 300384China

Maize(Zea mays)cultivation is strongly affected by both abiotic and biotic stress,leading to reduced growth and *** has recently become clear that regulators of plant stress responses,including the phytohormones abscisic acid(ABA),ethylene(ET),and jasmonic acid(JA),together with reactive oxygen species(ROS),shape plant growth and *** their well established functions in stress responses,these molecules play crucial roles in balancing growth and defense,which must be finely tuned to achieve high yields in crops while maintaining some level of *** this review,we provide an in-depth analysis of recent research on the developmental functions of stress regulators,focusing specifically on *** unraveling the contributions of these regulators to maize development,we present new avenues for enhancing maize cultivation and growth while highlighting the potential risks associated with manipulating stress regulators to enhance grain yields in the face of environmental challenges.

关键词： stress regulators maize development ABA ET JA ROS

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The use of Vis-NIR-SWIR spectroscopy in the prediction of soil available ions after application of rock powder

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Information Processing in Agriculture 2024年第1期11卷 26-44页

作者： Marlon Rodrigues Josiane Carla Argenta Everson Cezar Glaucio Leboso Alemparte Abrantes dos Santos ÖnderÖzal Amanda Silveira Reis Marcos Rafael Nanni department of agronomy State University of MaringáColombo AvenueMaringá87020900Brazil department of plant and Soil Sciences Mississippi State UniversityMS 39762USA International Agricultural Research and Training Center Izmir 35660Turkey

Some of the problems attributed to traditional laboratory analyses that limit the correct assessment of the nutrient contents in the soil are time requirements and high cost of the soil nutrient *** solve these problems,a study was carried out to evaluate the use of visible,near-infrared,and short-wave infrared(Vis-NIR-SWIR)spectroscopy in the prediction of soil available ions submitted to the application of rock *** study was carried out on an Arenosol in ParanavaíCity/***(rock powders)were arranged within a split-plot system designed in randomized blocks with four *** was cultivated for 14 months after the application of rock ***,96 soil samples were collected for measuring the pH and available ions P,K^(+),Ca^(2+),Mg^(2+),S-SO_(4)^(2-),Si,Cu^(2+),Fe^(2+),Mn^(2+),and Zn^(2+)as well as spectral reading through a Vis-NIR-SWIR spectroradiometer to predict the soil chemical attributes through the partial least square regression(PLS)*** results showed that the elements K^(+),Ca^(2+),Mg^(2+),Cu^(2+),and Fe^(2+)could be predicted with a reasonable rightness degree(R^(2)_(p)>0.50,RPDp>1.40)from spectral ***,for the attributes pH,P,S-SO_(4)^(2-),Si,Mn^(2+),and Zn^(2+),there were no satisfactory models(R^(2)_(p)<0.50,RPDp<1.40).Thus,the application of rock powder changed the spectral curves and,because of that,allows the building of PLS models to predict the elements K^(+),Ca^(2+),Mg^(2+),Cu^(2+),and Fe^(2+).Therefore,Vis-NIR-SWIR spectroscopy is a promising alternative to the routine analyses of soil fertility since it has advantages such as fast analytical speed,low cost,easy to operate,non-destructive,and environmentally friendly,because it does not use harmful chemicals.

关键词： Alternative inputs Available Ions Multivariate analysis Soil Spectroscopy

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The occurrence,inheritance,and segregation of complex genomic structural variation in synthetic Brassica napus

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The Crop Journal 2024年第2期12卷 515-528页

作者： Dandan Hu Jin Lu Wenwen Li Yinghui Yang Junxiong Xu Han Qin Hao Wang Yan Niu Huaiqi Zhang Qingqing Liu Xiangxiang He Annaliese S.Mason JChris Pires Zhiyong Xiong Jun Zou National Key Laboratory of Crop Genetic Improvement College of Plant Science and TechnologyHuazhong Agricultural UniversityWuhan 430070HubeiChina College of agronomy Henan Agricultural UniversityZhengzhou 450002HenanChina Key Laboratory of Herbage and Endemic Crop Biotechnology Inner Mongolia UniversityHohhot 010070Inner MongoliaChina plant breeding department University of BonnBonn 53115Germany department of Soil and Crop Sciences Colorado State UniversityFort CollinsCO 80523USA

"Synthetic"allopolyploids recreated by interspecific hybridization play an important role in providing novel genomic variation for crop *** synthetic allopolyploids often undergo rapid genomic structural variation(SV).However,how such SV arises,is inherited and fixed,and how it affects important traits,has rarely been comprehensively and quantitively studied in advanced generation synthetic lines.A better understanding of these processes will aid breeders in knowing how to best utilize synthetic allopolyploids in breeding ***,we analyzed three genetic mapping populations(735 DH lines)derived from crosses between advanced synthetic and conventional Brassica napus(rapeseed)lines,using whole-genome sequencing to determine genome *** observed high tolerance of large structural variants,particularly toward the telomeres,and preferential selection for balanced homoeologous exchanges(duplication/deletion events between the A and C genomes resulting in retention of gene/chromosome dosage between homoeologous chromosome pairs),including stable events involving whole chromosomes("pseudoeuploidy").Given the experimental design(all three populations shared a common parent),we were able to observe that parental SV was regularly inherited,showed genetic hitchhiking effects on segregation,and was one of the major factors inducing adjacent novel and larger ***,novel SV occurred at low frequencies with no significant impacts on observed fertility and yield-related traits in the advanced generation synthetic ***,incorporating genome-wide SV in linkage mapping explained significantly more genetic variance for *** results provide a framework for detecting and understanding the occurrence and inheritance of genomic SV in breeding programs,and support the use of synthetic parents as an important source of novel trait variation.

关键词： Allopolyploid Large Genome structural variation Linkage mapping Synthetic polyploids Inheritance and segregation

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Soils in extraterrestrial space: Need for studies under microgravity

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Pedosphere 2024年第1期34卷 13-14页

作者： M.B.KIRKHAM department of agronomy Kansas State UniversityManhattan KS 66506USA

With the increased interest of plants in space, gravity cannot be ignored when studying soil-plant-water relations. Therefore, it is important to understand the water relations of soils under zero gravity in space or under reduced gravity on the Moon or Mars. This paper outlines the problems of moving water in soils under zero gravity or microgravity, as well as growing plants in these soils. It is suggested that microgravity experiments could be done on Earth using both soils and plants. Results from such experiments could be used to grow plants when mankind establishes bases on the Moon and Mars.

关键词： soils soil bases

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Relationship between Seed Priming Mediated Seedling Vigor and Yield Performance of Spring Wheat

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Phyton-International Journal of Experimental Botany 2024年第6期93卷 1159-1177页

作者： Md.Parvez Anwar Masuma Akhter Sharmin Aktar Sinthia Afsana Kheya A.K.M.Mominul Islam Sabina Yeasmin Ahmed Khairul Hasan Md.Harun Or Rashid department of agronomy Bangladesh Agricultural UniversityMymensingh2202Bangladesh

Seed priming is a pre-germinated technique that can enhance seed germination percentage,faster and synchro-nized germination,better seedling growth,and yield under stress *** ascertain the most effective seed priming method that would ensure the potential yield of wheat in Bangladesh,two experiments were carried out from December 2021 to March 2022 at the department of agronomy,Bangladesh Agricultural *** wheat varieties namely BARI Gom-28 and BWMRI Gom-1 were subjected to a range of priming chemicals in both lab and pot *** compounds included the following:control(no priming),hydropriming(distilled water),10000 ppm KNO_(3),15000 ppm KNO_(3),40000 ppm Mannitol,60000 ppm Mannitol,10000 ppm NaCl,20000 ppm NaCl,100 ppm PEG,150 ppm PEG,500 ppm NaOCl,1000 ppm NaOCl,10000 ppm CaCl_(2),20000 ppm CaCl_(2),10000 ppm KCl and 20000 ppm KCl.A complete randomized design(CRD)with three repli-cations was used to set up the *** results showed that BARI Gom-28 and BWMRI Gom-1 responded best to KCl priming in terms of rapid seed germination and strong seedling *** the other hand,the best priming agents for plant growth and productivity turned out to be CaCl_(2) and *** results of this study support the possibility of using seed priming as a technique to improve wheat plant development and output by raising seed emergence and survival rates.

关键词： Priming seedling percentage germination growth yield wheat

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Developing a CRISPR/FrCas9 system for core promoter editing in rice

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aBIOTECH 2024年第2期5卷 189-195页

作者： Hui Wang Jian Ding Jingyan Zhu Xiaoshuang Liu Rongfang Xu Ruiying Qin Dongfang Gu Min Li Pengcheng Wei Juan Li College of agronomy Anhui Agricultural UniversityHefei 230036China Key Laboratory of Rice Genetic breeding of Anhui Province Rice Research InstituteAnhui Academy of Agricultural SciencesHefei 230031China Research Centre for Biological breeding Technology Advance AcademyAnhui Agricultural UniversityHefei 230036China

Small mutations in the core promoter region of a gene may result in substantial changes in expression ***,targeting TA-rich sequences of core promoters may pose a challenge for Cas9 variants such as SpCas9 and other G-rich PAM-compatible *** this study,we engineered a unique FrCas9 system derived from Faecalibaculum rodentium for plant genome *** findings indicate that this system is efficient in rice when the TATA sequence is used as a *** addition,FrCas9 demonstrated activity against all 16 possible NNTA PAMs,achieving an efficiency of up to 35.3%in calli and generating homozygous or biallelic mutations in 31.3%of the T_(0)transgenic plants.A proof-ofconcept experiment to examine editing of the rice WX core promoter confirmed that FrCas9-induced mutations could modify gene expression and amylose *** mutations and deletions were produced by bidirectional editing,mediated by FrCas9,using a single palindromic TATA sequence as a ***,we developed FrCas9-derived base editors capable of programmable conversion between AT and GC pairs in *** study highlights a versatile FrCas9 toolset for plant core promoter editing,offering great potential for the fine-tuning of gene expression and creating of new germplasms.

关键词： Genome editing FrCas9 CRISPR Core promoter Base editing

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Natural variation in maize gene ZmSBR1 confers seedling resistance to Fusarium verticillioides

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The Crop Journal 2024年第3期12卷 836-844页

作者： Yunxia Song Peipei Ma Jingyang Gao Chaopei Dong Zhao Wang Yifan Luan Jiafa Chen Doudou Sun Pei Jing Xuecai Zhang Weibin Song Zijian Zhou Jianyu Wu College of agronomy Henan Agricultural UniversityZhengzhou 450002HenanChina College of Life Sciences Henan Agricultural UniversityZhengzhou 450002HenanChina Global Maize Program International Maize and Wheat Improvement Center(CIMMYT)Apdo 6-64106600 MexicoDFMexico National Maize Improvement Center Department of Plant Genetics and BreedingChina Agricultural UniversityBeijing 100193China

Maize seedling blight caused by Fusarium verticillioides is a widely occurring maize disease,but the genetics and mechanisms of resistance are not well *** this study,GWAS performed by MLM and 3VmrMLM identified 40 and 20 QTNs,associated with seedling blight *** methods identified 49 and 36 genes,*** verification of candidate gene ZmSBR1 identified by both methods showed that the resistance of a mutant line to seedling blight decreased by 0.37 grade points after inoculation with ***,compared with the *** length of the stem rot lesion caused by *** increased by 86%in mutant seedlings,and the relative length of the adult plant stalk rot increased by 35%in mutant plants compared to the wild type after inoculation with Fusarium *** analysis showed that expression of defense-related genes after inoculation was down-regulated in the mutant compared to the wild type,synthesis of secondary metabolites associated with resistance was reduced,and the immune response triggered by PAMP decreased,resulting in decreased resistance of mutant maize *** gene association analysis showed that most maize inbred lines carried the susceptible haplotype.A functional PCR marker was *** results demonstrated that ZmSBR1 conferred resistance to multiple Fusarium diseases at the seedling and adult growth stages and had important application value in breeding.

关键词： Seedling blight Stalk rot Multiple disease resistance

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